2021-08-02 13:49:35,153 - pegasus.tools.batch_correction - INFO - Start integration using Harmony.
Initialization is completed.
Completed 1 / 10 iteration(s).
Completed 2 / 10 iteration(s).
Completed 3 / 10 iteration(s).
Reach convergence after 3 iteration(s).
2021-08-02 13:54:13,605 - pegasus.tools.batch_correction - INFO - Function 'run_harmony' finished in 278.45s.
2021-08-02 13:55:13,867 - pegasus.tools.nearest_neighbors - INFO - Function 'get_neighbors' finished in 60.26s.
2021-08-02 13:55:20,360 - pegasus.tools.nearest_neighbors - INFO - Function 'calculate_affinity_matrix' finished in 6.49s.
2021-08-02 13:55:27,364 - pegasus.tools.graph_operations - INFO - Function 'construct_graph' finished in 7.00s.
2021-08-02 13:57:56,838 - pegasus.tools.clustering - INFO - Louvain clustering is done. Get 41 clusters.
2021-08-02 13:57:57,057 - pegasus.tools.clustering - INFO - Function 'louvain' finished in 156.69s.
2021-08-02 13:57:57,059 - pegasus.tools.nearest_neighbors - INFO - Found cached kNN results, no calculation is required.
2021-08-02 13:57:57,060 - pegasus.tools.nearest_neighbors - INFO - Function 'get_neighbors' finished in 0.00s.
2021-08-02 13:57:57,121 - pegasus.tools.visualization - INFO - UMAP(dens_frac=0.0, dens_lambda=0.0, min_dist=0.5, random_state=0, verbose=True)
2021-08-02 13:57:57,122 - pegasus.tools.visualization - INFO - Construct fuzzy simplicial set
2021-08-02 13:57:58,149 - pegasus.tools.visualization - INFO - Construct embedding
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2021-08-02 14:00:51,452 - pegasus.tools.visualization - INFO - Function 'umap' finished in 174.39s.